GEO DataSets

(Submitter supplied) During early telencephalic development, intricate processes of regional patterning and neural stem cell (NSC) fate specification take place. However, our understanding of these processes in primates, including both conserved and species-specific features, remains limited. Here, we profiled 761,529 single-cell transcriptomes from multiple regions of the prenatal macaque telencephalon. We deciphered the molecular programs of the early organizing centers and their cross-talk with NSCs, revealing primatebiased galanin-like peptide (GALP) signaling in the antero-ventral telencephalon. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23949 GPL19129

82 Samples

Download data: MTX, TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Macaca mulatta; Homo sapiens; Pan troglodytes

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

6 related Platforms

24 Samples

Download data

(Submitter supplied) Genomic changes acquired in human evolution contribute to the unique abilities of human brain. However, characterizing the molecular underpinnings of human-specific traits is a multifaceted challenge due to the cellular heterogeneity of human brain and complex regulation of gene expression. Here, we performed single-nuclei RNA-sequencing (snRNA-seq) and single-nuclei ATAC-seq (snATAC-seq) in human, chimpanzee, and rhesus macaque brain tissue (brodmann area 23, posterior cingulate cortex). more...

Organism:

Macaca mulatta; Pan troglodytes; Homo sapiens

Type:

Expression profiling by high throughput sequencing

6 related Platforms

12 Samples

Download data: MTX, RDS, TXT, XLSX

(Submitter supplied) Genomic changes acquired in human evolution contribute to the unique abilities of human brain. However, characterizing the molecular underpinnings of human-specific traits is a multifaceted challenge due to the cellular heterogeneity of human brain and complex regulation of gene expression. Here, we performed single-nuclei RNA-sequencing (snRNA-seq) and single-nuclei ATAC-seq (snATAC-seq) in human, chimpanzee, and rhesus macaque brain tissue (brodmann area 23, posterior cingulate cortex). more...

Organism:

Pan troglodytes; Macaca mulatta; Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

6 related Platforms

12 Samples

Download data: MTX, RDS, TXT, XLSX

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL29319 GPL19129

73 Samples

Download data: GTF

(Submitter supplied) Long non-coding RNAs (lncRNAs) are pivotal mediators of systemic immune response to viral infection yet most studies concerning their expression and functions upon immune stimulation are limited to in vitro bulk cell populations. This strongly constrains our understanding of how lncRNA expression varies at single-cell resolution, and whether differences with protein coding genes exist in their cell-type specific immune regulatory roles. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

57 Samples

Download data: GTF

(Submitter supplied) N6-methyladenine (6mA) DNA modification in eukaryotic genomes has emerged as a potential epigenetic mark. However, little is known about how 6mA epigenetic codes are read and interpreted in higher eukaryotes. Here we investigate 6mA genome-wide distributions in multiple higher eukaryotes. Using Drosophila as a pioneer system, we show that 6mA exhibits defined patterns and preferentially marks zygotic genes in early embryos. more...

Organism:

Macaca mulatta; Mus musculus; Drosophila melanogaster; Rattus norvegicus

Type:

Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other

5 related Platforms

22 Samples

Download data: BED, TXT

(Submitter supplied) The development of an effective vaccine to protect against HIV acquisition will be greatly bolstered by in-depth understanding of the innate and adaptive responses to the virus. We report here that the efficacy of DNA/ALVAC/gp120/alum vaccines, based on V2-specific antibodies mediating apoptosis of infected cells (V2-ADCC), is complemented by efferocytosis, a cyclic AMP (cAMP)-dependent antiphlogistic engulfment of apoptotic cells by CD14+ monocytes. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

60 Samples

Download data: TXT

(Submitter supplied) In this study, we demonstrate that LAMP5 is essential for proliferation of MLL-rearranged leukemias. Through gene expression changes occurring upon LAMP5 knockdown, we show that LAMP5 maintains an important balance between Type I interferon and NFkB signaling, and that knockdown biases MLL leukemia cells towards activation of the interferon pathway

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

110 Samples

Download data: TXT

(Submitter supplied) BACKGROUND: Maternal immune activation (MIA) is a proposed risk factor for multiple neuropsychiatric disorders, including schizophrenia. However, the molecular mechanisms through which MIA imparts risk remain poorly un- derstood. A recently developed nonhuman primate model of exposure to the viral mimic poly:ICLC during pregnancy shows abnormal social and repetitive behaviors and elevated striatal dopamine, a molecular hallmark of human psychosis, providing an unprecedented opportunity for studying underlying molecular correlates. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

52 Samples

Download data: XLSX

(Submitter supplied) Zika virus (ZIKV) infection at the maternal-placental interface is associated with adverse pregnancy outcomes including fetal demise and pregnancy loss. To determine how infection impacts placental trophoblasts, we utilized rhesus macaque trophoblast stem cells (TSC) that can be directed to differentiate into early gestation syncytiotrophoblasts (ST) and extravillous trophoblasts (EVT). TSCs and STs, but not EVTs, were highly permissive to productive infection with ZIKV strain DAK AR 41524. more...

Organism:

Macaca mulatta

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL19129

48 Samples

Download data: XLSX

(Submitter supplied) Neuroanatomists have long speculated that expanded primate brains contain an increased morphological diversity of inhibitory neurons (doi:10.1038/nrn3444, DeFelipe et al.) and recent studies have identified primate-specific neuronal populations at the molecular level(doi:10.1038/s41586-020-2781-z, Krienen et al.). However, we know little about the developmental mechanisms that specify evolutionarily novel cell types in the brain. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23949 GPL19129 GPL27943

70 Samples

Download data: CSV, H5AD

(Submitter supplied) The induction of type I interferons during acute viral infections drives local and systemic anti-viral responses. However, in chornic virus infection these type I interferon driven responses can be detrimental and can be characterized impaired immune responses (greater T cell exhaustion) and an overall decline in health outcomes. To parse out the role of type I IFN and assess the therapeutic impact of blocking type I IFN, we administered IFN-a blocking antibody to a cohort of SIV-infected ART treated Maccaca mulata. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

48 Samples

Download data: XLSX

(Submitter supplied) Circular RNAs (circRNAs) are found across eukaryotes and can function in post-transcriptional gene regulation. Their biogenesis through a circle-forming backsplicing reaction is facilitated by reverse-complementary repetitive sequences promoting pre-mRNA folding. Orthologous genes from which circRNAs arise overall, contain more strongly conserved splice sites and exons than other genes, yet it remains unclear to what extent this conservation reflects purifying selection acting on the circRNAs themselves. more...

Organism:

Mus musculus; Rattus norvegicus; Monodelphis domestica; Macaca mulatta; Homo sapiens

Type:

Expression profiling by high throughput sequencing

5 related Platforms

84 Samples

Download data: GTF, TXT

(Submitter supplied) Our knowledge of genomic imprinting in primates is lagging behand that of mice largely due to the difficulties of allelic analyses in outbred animals. To understand imprinting dynamics in primates, we profiled transcriptomes, DNA methylomes and H3K27me3 in uniparental monkey embryos. We further developed single-nucleotide polymorphisms (SNP)-free methods, TARSII and CARSII, to identify germline differentially methylated regions (DMRs) in somatic tissues. more...

Organism:

Macaca mulatta; Macaca fascicularis

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

Platforms:

GPL19129 GPL20302

29 Samples

Download data: TXT, WIG

(Submitter supplied) Despite the recent interest in plasma microRNA (miRNA) biomarkers in acute ischemic stroke patients, there is limited knowledge about the miRNAs directly related to stroke itself due to the multiple complications in patients, which has hindered the research progress of biomarkers and therapeutic targets of ischemic stroke. Therefore, in this study, we compared the differentially expressed miRNA profiles in the plasma of three rhesus monkeys pre- and post-cerebral ischemia. more...

Organism:

Macaca mulatta

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL19129

6 Samples

Download data: XLSX

(Submitter supplied) We generated ChIP-Seq (H3K4me1, H3K4me3 and H3K27ac) data for term Rhesus monkey placenta. Together with RNA-Seq and epigenomic data generated for placentas of human and mouse, we aim to understand the evolution of gene expression and regulatory elements among the placentas of different mammalian species.

Organism:

Macaca mulatta

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19129

7 Samples

Download data: BED

(Submitter supplied) We generated RNA-Seq data for Rhesus monkey placenta. Together with RNA-Seq and epigenomic data generated for placentas of human and mouse, we aim to understand the evolution of gene expression and regulatory elements among the placentas of different mammalian species.

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

2 Samples

Download data: TXT

(Submitter supplied) We demonstrated that the intensity of the immune response to LPS and E. coli regulates the induction of preterm labor in Rhesus macaques

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

11 Samples

Download data: TXT

(Submitter supplied) Bulk RNA-seq of macaque prenatal lung at GA105, GA130, and GA150

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19129

7 Samples

Download data: XLSX